Biostar Handbook issue with doctor.py

Question

[popozan]

Hi guys, I am very new to bioinformatics and using the biostar handbook to teach me, Started installing packages, and I came across the error

Unable to run: fastq-dump, bio, fastq-dump -X 1 -Z SRR1553591

On bash, this is the result when I ran doctor.py:

# Checking symptoms ...
# bwa           ... OK
# datamash      ... OK
# fastqc -h     ... OK
# hisat2        ... OK
# featureCounts ... OK
# efetch        ... OK
# esearch       ... OK
# samtools      ... OK
# fastq-dump    --> ERROR
# bowtie2       ... OK
# bcftools      ... OK
# seqtk         ... OK
# seqkit        ... OK
# bio           --> ERROR
# fastq-dump -X 1 -Z SRR1553591 --> ERROR
#
# Found some problems
#
# Unable to run: fastq-dump, bio, fastq-dump -X 1 -Z SRR1553591
#
# Check the Biostar Handbook for installation help.
#
#
# Warning: the ~/bin folder is not in your PATH!

Any advice?

[Bastien Hervé]

I have never run this, can you try fastq- dump error message

[GenoMax]

Please create an issue with this error at Biostars handbook issues page: https://github.com/biostars/biostar-handbook/issues